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Cross-modal text-molecule retrieval model aims to learn a shared feature space of the text and molecule modalities for accurate similarity calculation, which facilitates the rapid screening of molecules with specific properties and…

Information Retrieval · Computer Science 2024-11-01 Jia Song , Wanru Zhuang , Yujie Lin , Liang Zhang , Chunyan Li , Jinsong Su , Song He , Xiaochen Bo

Molecule-and-text cross-modal representation learning has emerged as a promising direction for enhancing the quality of molecular representation, thereby improving performance in various scientific fields. However, most approaches employ a…

Quantitative Methods · Quantitative Biology 2025-03-04 Yikun Zhang , Geyan Ye , Chaohao Yuan , Bo Han , Long-Kai Huang , Jianhua Yao , Wei Liu , Yu Rong

Recent studies have proposed different methods to improve multilingual word representations in contextualized settings including techniques that align between source and target embedding spaces. For contextualized embeddings, alignment…

Computation and Language · Computer Science 2026-03-20 Sawsan Alqahtani , Garima Lalwani , Yi Zhang , Salvatore Romeo , Saab Mansour

The problem of accelerating drug discovery relies heavily on automatic tools to optimize precursor molecules to afford them with better biochemical properties. Our work in this paper substantially extends prior state-of-the-art on…

Chemical Physics · Physics 2019-10-22 Wengong Jin , Regina Barzilay , Tommi Jaakkola

Effectively integrating molecular graph structures with Large Language Models (LLMs) is a key challenge in drug discovery. Most existing multi-modal alignment methods typically process these structures by fine-tuning the LLM or adding a…

Machine Learning · Computer Science 2025-10-15 Tao Yin , Xiaohong Zhang , Jiacheng Zhang , Li Huang , Zhibin Zhang , Yuansong Zeng , Jin Xie , Meng Yan

Training data are usually limited or heterogeneous in many chemical and biological applications. Existing machine learning models for chemistry and materials science fail to consider generalizing beyond training domains. In this article, we…

Machine Learning · Computer Science 2023-10-31 Fang Wu , Nicolas Courty , Shuting Jin , Stan Z. Li

We view molecular optimization as a graph-to-graph translation problem. The goal is to learn to map from one molecular graph to another with better properties based on an available corpus of paired molecules. Since molecules can be…

Machine Learning · Computer Science 2019-01-30 Wengong Jin , Kevin Yang , Regina Barzilay , Tommi Jaakkola

Model merging offers a scalable alternative to multi-task learning but often yields suboptimal performance on classification tasks. We attribute this degradation to a geometric misalignment between the merged encoder and static…

Machine Learning · Computer Science 2026-02-03 Fanshuang Kong , Richong Zhang , Zhijie Nie , Hang Zhou , Ziqiao Wang , Qiang Sun , Chunming Hu

Few-Shot Remote Sensing Scene Classification (FS-RSSC) presents the challenge of classifying remote sensing images with limited labeled samples. Existing methods typically emphasize single-modal feature learning, neglecting the potential…

Computer Vision and Pattern Recognition · Computer Science 2025-03-20 Zhong Ji , Ci Liu , Jingren Liu , Chen Tang , Yanwei Pang , Xuelong Li

Understanding molecular structure and related knowledge is crucial for scientific research. Recent studies integrate molecular graphs with their textual descriptions to enhance molecular representation learning. However, they focus on the…

Artificial Intelligence · Computer Science 2025-06-02 Yibo Li , Yuan Fang , Mengmei Zhang , Chuan Shi

Selecting input features of top relevance has become a popular method for building self-explaining models. In this work, we extend this selective rationalization approach to text matching, where the goal is to jointly select and align text…

Machine Learning · Computer Science 2020-05-28 Kyle Swanson , Lili Yu , Tao Lei

Multimodal alignment is commonly learned from isolated image-text pairs via CLIP-style dual encoders, leaving the relational context among entities largely unused. Multimodal attributed graphs (MAGs), where nodes carry multimodal attributes…

Machine Learning · Computer Science 2026-05-18 Xu Wang , Xunkai Li , Yinlin Zhu , Rong-Hua Li , Guoren Wang

Cross-modal matching, a fundamental task in bridging vision and language, has recently garnered substantial research interest. Despite the development of numerous methods aimed at quantifying the semantic relatedness between image-text…

Information Retrieval · Computer Science 2026-03-17 Zhengxin Pan , Haishuai Wang , Fangyu Wu , Bailing Zhang , Jiajun Bu , Hongyang Chen

Spoken Language Models (SLMs), which extend Large Language Models (LLMs) to perceive speech inputs, have gained increasing attention for their potential to advance speech understanding tasks. However, despite recent progress, studies show…

Computation and Language · Computer Science 2025-08-12 Wenze Xu , Chun Wang , Jiazhen Yu , Sheng Chen , Liang Gao , Weihong Deng

Language Models (LMs) have demonstrated impressive molecule understanding ability on various 1D text-related tasks. However, they inherently lack 2D graph perception - a critical ability of human professionals in comprehending molecules'…

Computation and Language · Computer Science 2024-01-19 Zhiyuan Liu , Sihang Li , Yanchen Luo , Hao Fei , Yixin Cao , Kenji Kawaguchi , Xiang Wang , Tat-Seng Chua

Molecule and text representation learning has gained increasing interest due to its potential for enhancing the understanding of chemical information. However, existing models often struggle to capture subtle differences between molecules…

Machine Learning · Computer Science 2025-10-31 Hyuntae Park , Yeachan Kim , SangKeun Lee

Artificial intelligence has demonstrated immense potential in scientific research. Within molecular science, it is revolutionizing the traditional computer-aided paradigm, ushering in a new era of deep learning. With recent progress in…

Biomolecules · Quantitative Biology 2024-03-22 Yi Xiao , Xiangxin Zhou , Qiang Liu , Liang Wang

We study sample-efficient molecular optimization under a limited budget of oracle evaluations. We propose MolLIBRA (MultimOdaLity and Language Integrated Bayesian and evolutionaRy optimizAtion), a genetic algorithm based framework that…

Neural and Evolutionary Computing · Computer Science 2026-02-10 Masahi Okada , Kazuki Sakai , Hiroaki Yoshida , Masaki Okoshi , Tadahiro Taniguchi

Knowledge distillation is a key technique for compressing large language models (LLMs), but most existing methods align representations at fixed layers or token-level outputs, ignoring how representations evolve across depth. As a result,…

Computation and Language · Computer Science 2026-05-05 Pham Khanh Chi , Quoc Phong Dao , Thuat Nguyen , Linh Ngo Van , Trung Le , Thanh Hong Nguyen

Multimodal ophthalmic imaging-based diagnosis integrates color fundus image with optical coherence tomography (OCT) to provide a comprehensive view of ocular pathologies. However, the uneven global distribution of healthcare resources often…

Computer Vision and Pattern Recognition · Computer Science 2025-07-08 Qinkai Yu , Jianyang Xie , Yitian Zhao , Cheng Chen , Lijun Zhang , Liming Chen , Jun Cheng , Lu Liu , Yalin Zheng , Yanda Meng
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